CommonMind – New Open Research Resource

Press Release: CommonMind Consortium Launched as a Public-Private Effort to Generate and Broadly Share Molecular Data on Neuropsychiatric Disease.

Date: April 9th, 2012
Contact: Jonathan Derry, Vice-President, Sage Bionetworks
Tel: (206) 667-2101   email: info@CommonMind.org

SEATTLE, WA.  Sage Bionetworks, Mount Sinai School of Medicine (MSSM), University of Pennsylvania (Penn), the National Institute of Mental Health (NIMH), and Takeda Pharmaceuticals Company Limited (TAKEDA) have launched a Public-Private Pre-Competitive Consortium to generate and analyze large-scale genomic data from human subjects with neuropsychiatric disease and to make this data and the associated analytical results broadly available to the public. This collaboration brings together disease area expertise, large scale and well curated brain sample collections, and data management and analysis expertise from the respective institutions.

As many as 450 million people worldwide are believed to be living with a mental or behavioral disorder: schizophrenia and bipolar disorder are two of the top six leading causes of years lived with disability according to the World Health Organization. The burden on the individual as well as on society is significant with estimates for the health care costs for these individuals as high as four percent GNP. This highlights a grave need for new therapies to alleviate this suffering.

Researchers from MSSM including Dr. Pamela Sklar, Dr. Joseph Buxbaum and Dr. Eric Schadt will join with Dr. Raquel Gur and Dr. Chang-Gyu Hahn from Penn to combine their extensive brain bank collections for the generation of whole genome scale RNA and DNA sequence data. Dr. Pamela Sklar, Professor of Psychiatry and Neuroscience at MSSM commented “this is an exciting opportunity for us to use the newest genomic methods to really expand our understanding of the molecular underpinnings of neuropsychiatric disease”, while Dr Raquel Gur, Professor of Psychiatry from Penn observed “this will be a great complement to some of the large-scale genetic analyses that have been carried out to date because it will give a more complete mechanistic picture”.

Dr. Jonathan Derry, Vice President of Research at Sage Bionetworks noted, “We are truly thrilled to be partnering with some of the best brain researchers to generate an unprecedented scale of molecular data that we will make broadly available as a resource to the community through our data analysis and management platform Synapse.”  Dr Thomas Lehner, Chief Genomics Research Branch at NIMH added, “The NIMH is particularly excited about this partnership that will leverage resources and expertise in both the public and the private sector to accelerate research into the causes and treatments of major mental illness”.

TAKEDA has provided seed funding for the effort that will look to expand in the future. The CommonMind Consortium is committed to generating an open resource for the community and invites others with common goals to contact us at info@CommonMind.org.

Download PDF of Press Release

Young Investigator Travel Awards

Sage Bionetworks is offering 10 travel awards to the 2012 Commons Congress in San Francisco to grad students, postdocs and early stage investigators. Details and an on line application form are available on the Congress website.  This is a fantastic opportunity for young clinicians, biologists, software engineers and computational scientists who are passionate about open science and data-intensive science to participate and contribute.

Application deadline is February 29, so act quickly. Please forward this information on to outstanding candidates!

 

Conversations

network building in the Big Data Deluge

Sage Bionetworks is holding an interactive colloquium with the Hutchinson Cancer Research Center on collective approaches to analyzing the tsunami of medical research data and translate it into healthcare advances. Come find out what you need to take advantage of high performance, cloud-based computing and the development of predictive models of disease within a collaborative platform.

Presentations and Roundtable:
FHCRC – david hockenbery • soheil meshinchi • pete nelson • jim olson • riki peters • jerry radich
UW – kelly edwards
SAGE BIONETWORKS – jonathan derry • stephen friend • erich huang • lara mangravite • adam margolin
GUEST SPEAKER – eric schadt
synapse demonstrations • sage bionetworks software platform team
poster presentations • sage bionetworks scientists & engineers

Questions? contact conversations@sagebase.org

Monday 23 January 2012 – 2 PM – 5 PM

Pelton Auditorium • Thomas Building • Fred Hutchinson Cancer Research Center • 1100 Fairview Ave. N. • Seattle WA

Download PDF of Program

Synapse Demonstration Webinar on line

One of Sage Bionetworks’ primary activities is the creation of a computational platform, called Synapse, that will facilitate open, reproducible data-driven science and support the reusability of information by ontology-based services and applications directed at scientific researchers and data curators. Dr. Michael Kellen, Director of Technology at Sage Bionetworks provided a demonstration of an alpha version of the Synapse platform to the National Center for Biomedical Ontology and discussed its application to clinical science.  A recorded webinar of his presentation and the discussions is available on line: http://www.bioontology.org/Sage-Bionetworks-Synapse-Project

2011 Sage Bionetworks Commons Congress

Preparations are underway for the next Sage Bionetworks Congress which will be held April 15-16, 2011 in San Francisco. Our theme for the coming year is the move towards personalized, patient-driven medicine, and the role that Sage Bionetworks can play in that transition. There will be reports from the Sage Bionetworks Federation, Working Groups, and exciting projects like SageCite, as well as hackathons, poster sessions, and evening activities.

The Congress Announcement page contains information on the “attendance criteria”; this year we are asking potential attendees to indicate how they are working to build a commons, whether in data, technology, science, policy, advocacy or more. We really want this meeting to be one in which everyone has a stake, and has worked to make a more open approach to science a reality. We expect significant demand for about 250 seats so if you’d like to attend please register your interest soon.

More Genomics Current Events Reading

Sage Bionetworks
Stephen Friend has published a short editorial/review on the Sage Commons Congress in the new journal Science Translational Medicine.  It connects Sage Bionetworks’ vision and mission with the activities of the April meeting.  Free access is available on the Sage Bionetworks News page.

Nature Biotechnology continues to follow new industry trends in its July 2010 issue.  Stephen Strauss contributed an article entitled, “Pharma Embraces Open Source Models” that highlights Sage’s progressive pharmaceutical partnerships.

DIY Genomics
The fledgling Direct to Consumer (DTC) genomics industry encountered a congressional tempest in Washington DC last week with the release of a highly critical GAO report and subsequent committee hearings.  The report is available on line and there are several insightful commentaries from National Public Radio, Natasha Singer in The New York Times, Dan Vorhaus, Daniel MacArthur and David Ewing Duncan in Fortune.com as well as a rebuttal from 23 and me.